BiomiX, a user-friendly bioinformatic tool for democratized analysis and integration of multiomics data by Cristian Iperi, Álvaro Fernández-Ochoa, Guillermo Barturen, Jacques-Olivier Pers, Nathan Foulquier, Eleonore Bettacchioli, Marta Alarcón-Riquelme, PRECISESADS Flow Cytometry Study Group, PRECISESADS Clinical Consortium, Divi Cornec, Anne Bordron, Christophe Jamin

Subjects: “…Multiomics…”
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Deciphering Immunometabolic Landscape in Rheumatoid Arthritis: Integrative Multiomics, Explainable Machine Learning and Experimental Validation by Dong Q, Wu J, Zhang H, Chen X, Xu X, Chen J, Shi C, Luo L, Zhang D

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Multiomics approach identifies dysregulated lipidomic and proteomic networks in Parkinson’s disease patients mutated in TMEM175 by Federica Carrillo, Marco Ghirimoldi, Giorgio Fortunato, Nicole Piera Palomba, Laura Ianiro, Veronica De Giorgis, Shahzaib Khoso, Tiziana Giloni, Sara Pietracupa, Nicola Modugno, Elettra Barberis, Marcello Manfredi, Teresa Esposito

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Understanding the role of potential biomarkers in attenuating multiple sclerosis progression via multiomics and network-based approach. by Nitesh Shriwash, Ayesha Aiman, Prithvi Singh, Seemi Farhat Basir, Anas Shamsi, Mohammad Shahid, Ravins Dohare, Asimul Islam

“…This study aims to elucidate the molecular progression of MS using multiomics and network-based approach.<h4>Methods</h4>We procured differentially expressed genes in MS patients and healthy controls by accessing mRNA dataset from a publicly accessible database. …”
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Deciphering the generation of heterogeneity in esophageal squamous cell carcinoma metastasis via single-cell multiomics analysis by Kaiwen Sheng, Jun Chen, Ruitang Xu, Haoqiang Sun, Ran Liu, Yongjie Wang, Wenwen Xu, Jiao Guo, Miao Zhang, Shuai Liu, Juan Lei, Yawen Sun, Yang Jia, Dianhao Guo

Subjects: “…Single-cell multiomic analysis…”
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Network analyses of brain tumor multiomic data reveal pharmacological opportunities to alter cell state transitions by Brandon Bumbaca, Jonah R. Huggins, Marc R. Birtwistle, James M. Gallo

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Multiomic quantification of the KRAS mutation dosage improves the preoperative prediction of survival and recurrence in patients with pancreatic ductal adenocarcinoma by Won-Gun Yun, Daeun Kim, Youngmin Han, Wooil Kwon, Seong-Geun Lee, Jin-Young Jang, Daechan Park

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Host-microbe multiomic profiling identifies distinct COVID-19 immune dysregulation in solid organ transplant recipients by Harry Pickering, Joanna Schaenman, Hoang Van Phan, Cole Maguire, Alexandra Tsitsiklis, Nadine Rouphael, Nelson Iván Agudelo Higuita, Mark A. Atkinson, Scott Brakenridge, Monica Fung, William Messer, IMPACC Network, Ramin Salehi-rad, Matthew C. Altman, Patrice M. Becker, Steven E. Bosinger, Walter Eckalbar, Annmarie Hoch, Naresh Doni Jayavelu, Seunghee Kim-Schulze, Meagan Jenkins, Steven H. Kleinstein, Florian Krammer, Holden T. Maecker, Al Ozonoff, Joann Diray-Arce, Albert Shaw, Lindsey Baden, Ofer Levy, Elaine F. Reed, Charles R. Langelier

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Mendelian randomization and multiomics comprehensively reveal the causal relationship and potential mechanism between atrial fibrillation and gastric cancer by Zhao Sicheng, Zhao Sicheng, Zhang Jingcheng, Zhang Jingcheng, Zhang Shuo, Zhang Shuo, Lou Jiaheng, Lou Jiaheng, Cai Yan, Cai Yan, Bai Xing, Bai Xing, Jiang Tao, Jiang Tao, Jiang Tao, Zhang Guangji, Zhang Guangji, Zhang Guangji

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Liver cancer multiomics reveals diverse protein kinase A disruptions convergently produce fibrolamellar hepatocellular carcinoma by David Requena, Jack A. Medico, Luis F. Soto-Ugaldi, Mahsa Shirani, James A. Saltsman, Michael S. Torbenson, Philip Coffino, Sanford M. Simon

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Integrative genetics and multiomics analysis reveal mechanisms and therapeutic targets in vitiligo highlighting JAK STAT pathway regulation of CTSS by Zi-yue Dong, Ming-jie He, Yong-kai Yu, Fang Wang, Peng-yuan Zhao, De-long Ran, De-shuang Fu, Qing He, Run-ping Yang, Jiang-an Zhang

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Multiomics characterization of breast angiosarcoma from an Asian cohort reveals enrichment for angiogenesis signaling pathway and tumor-infiltrating macrophages by Tun Kiat Ko, Zexi Guo, Bavani Kannan, Boon Yee Lim, Jing Yi Lee, Zhimei Li, Elizabeth Chun Yong Lee, Bin Tean Teh, Bin Tean Teh, Jason Yongsheng Chan, Jason Yongsheng Chan, Jason Yongsheng Chan

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Using multiomic integration to improve blood biomarkers of major depressive disorder: a case-control studyResearch in context by Amazigh Mokhtari, El Chérif Ibrahim, Arnaud Gloaguen, Claire-Cécile Barrot, David Cohen, Margot Derouin, Hortense Vachon, Guillaume Charbonnier, Béatrice Loriod, Charles Decraene, Ipek Yalcin, Cynthia Marie-Claire, Bruno Etain, Raoul Belzeaux, Andrée Delahaye-Duriez, Pierre-Eric Lutz

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Integrative multiomics reveals common endotypes across PSEN1, PSEN2, and APP mutations in familial Alzheimer’s disease by Phoebe Valdes, Andrew B. Caldwell, Qing Liu, Michael Q. Fitzgerald, Srinivasan Ramachandran, Celeste M. Karch, Dominantly Inherited Alzheimer Network (DIAN), Douglas R. Galasko, Shauna H. Yuan, Steven L. Wagner, Shankar Subramaniam

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Systematic multiomics analysis and in vitro experiments suggest that ITGA5 could serve as a promising therapeutic target for ccRCC by Xiangxian Che, Xi Tian, Zhenda Wang, Shuxuan Zhu, Shiqi Ye, Yue Wang, Yihan Chen, Yiyun Huang, Aihetaimujiang Anwaier, Peifeng Yao, Yijia Chen, Keting Wu, Yifei Liu, Wenhao Xu, Hailiang Zhang, Dingwei Ye

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Single-cell multiomics reveal divergent effects of DNMT3A- and TET2-mutant clonal hematopoiesis in inflammatory response by Wazim Mohammed Ismail, Jenna A. Fernandez, Moritz Binder, Terra L. Lasho, Minsuk Kim, Susan M. Geyer, Amelia Mazzone, Christy M. Finke, Abhishek A. Mangaonkar, Jeong-Heon Lee, Liguo Wang, Kwan Hyun Kim, Vernadette A. Simon, Fariborz Rakhshan Rohakthar, Amik Munankarmy, Seul Kee Byeon, Susan M. Schwager, Jonathan J. Harrington, Melissa R. Snyder, Keith D. Robertson, Akhilesh Pandey, Eric D. Wieben, Nicholas Chia, Alexandre Gaspar-Maia, Mrinal M. Patnaik

“…Using single-cell proteogenomics we show that DNMT3A mutations involve myeloid and lymphoid lineage cells. Using single-cell multiomics sequencing, we identify cell-specific gene expression changes associated with DNMT3A mutations, along with significant epigenomic deregulation affecting enhancer accessibility, resulting in overexpression of interleukin-32 (IL-32), a proinflammatory cytokine that can result in inflammasome activation in monocytes and macrophages. …”
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Multiomics Integrated Analysis Identifies SLC24A2 as a Potential Link between Type 2 Diabetes and Cancer by Qin Bian, Haijun Li, Xiaoyi Wang, Tingting Liang, Kai Zhang

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Multiomics profiling reveals the benefits of gamma-delta (γδ) T lymphocytes for improving the tumor microenvironment, immunotherapy efficacy and prognosis in cervical cancer by Xiaofeng Wang, Chen Li, Jie Chen, Zhiqiang Wu, Zhen Zhang, Junyi Li, Lu Yu, Yong Guan, Yuhan Zhang, Yuanjie Cao, Yancheng Liu, Hui Bai, Shaochuan Liu, Miaomiao Gao, Chenglu Lu, Zhen Tao, Zhiyong Yuan

“…As the cervix is a mucosa-rich tissue, the role of γδ T cells in cervical cancer warrants further investigation.Methods We employed a multiomics strategy that integrated abundant data from single-cell and bulk transcriptome sequencing, whole exome sequencing, genotyping array, immunohistochemistry, and MRI.Results Heterogeneity was observed in the level of γδ T-cell infiltration in cervical cancer tissues, mainly associated with the tumor somatic mutational landscape. …”
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Comprehensive genomic and transcriptomic analyses of the anaerobic degradation of microcystin in Alcaligenes faecalis D04 by Fei Yang, Lili Yang, Jia Wei, Tian Ma, Mengna Zhou, Liwen Liao, Junhao Xie, Pengji Zhou

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Comparative analysis of regression algorithms for drug response prediction using GDSC dataset by Soojung Ha, Juho Park, Kyuri Jo

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